By controlled deposition, TiOPc, a molecular semiconductor with anisotropic interactions can generate a molecular film with a characteristic pattern repeat size of 15 nm. This structure then served as a nanotemplate for a superlattice of C-60 clusters with characteristic diameters of 7 nm. As a result, C-60, deposition on the TiOPc film template forms a pattern of nanophase-separated C-60 and TiOPc domains with a characteristic domain size of 7 nm. This feature size is matched to the exciton diffusion length in photovoltaic materials composed of small organic molecules. A dislocation network in a molecular film provides a promising method for generating pattern features on the several-nanometer length scale, bridging the practical limits of "bottom up" and "top down" strategies.